Wheeler Lab

Pinned Repositories

AvxWindowFmIndex
A fast, AVX2 and ARM Neon accelerated FM index library
Language:C31 6 195
BATH
Better Alignments with Translated HMMER
Language:C15 5 83
DIPLOMAT
Deep learning-based Identity Preserving Labeled-Object Multi-Animal Tracking (Beta)
Language:Python7 3 32
drug-sniffer
Sniffing out new drugs
Language:HTML21 5 149
Mirage
Mirage generates multiple sequence alignments of proteoforms by mapping sequences back to their coding regions on the genome and then compressing those mappings into alignments.
Language:Perl9 5 184
nail
Nail is an Alignment Inference tooL
Language:Rust42 5 42
NEAR
Language:Makefile2 2 10
polyA
Automatically Adjudicate Any And All Arbitrary Annotations, Astutely Adjoin Abutting Alignments, And Also Amputate Anything Amiss (AAAAAAAAAAAAAAAA)
Language:Python8 6 192
sufr
Parallel Construction of Suffix Arrays in Rust
Language:Rust10 3 11
ULTRA
ULTRA Locates Tandemly Repetitive Areas
Language:C++24 7 294

Wheeler Lab's Repositories

TravisWheelerLab/nail
Nail is an Alignment Inference tooL
Language:Rust42 5 42
TravisWheelerLab/AvxWindowFmIndex
A fast, AVX2 and ARM Neon accelerated FM index library
Language:C31 6 195
TravisWheelerLab/ULTRA
ULTRA Locates Tandemly Repetitive Areas
Language:C++24 7 294
TravisWheelerLab/BATH
Better Alignments with Translated HMMER
Language:C15 5 83
TravisWheelerLab/sufr
Parallel Construction of Suffix Arrays in Rust
Language:Rust10 3 11
TravisWheelerLab/polyA
Automatically Adjudicate Any And All Arbitrary Annotations, Astutely Adjoin Abutting Alignments, And Also Amputate Anything Amiss (AAAAAAAAAAAAAAAA)
Language:Python8 6 192
TravisWheelerLab/DIPLOMAT
Deep learning-based Identity Preserving Labeled-Object Multi-Animal Tracking (Beta)
Language:Python7 3 32
TravisWheelerLab/VIBES
Viral Integrations in Bacterial genomES
Language:HTML6 4 70
TravisWheelerLab/NINJA
Nearly Infinite Neighbor Joining Application
Language:C5 5 347
TravisWheelerLab/FastaVector
A C library for reading/writing entire fasta files. Fasta files are loaded into internal buffers that store all headers and sequences such that each sequence and header can be found via a simple lookup function.
Language:C3 5 01
TravisWheelerLab/aurora
Language:Rust2 3 0
TravisWheelerLab/NEAR
Language:Makefile2 2 10
TravisWheelerLab/hmmer
HMMER: biological sequence analysis using profile HMMs
Language:C1 1 0
TravisWheelerLab/sculu-rs
Rust implementation of SCULU (Subfamily Clustering Using Label Uncertainty)
Language:Rust1 3 0
TravisWheelerLab/strobemers
Strobemers in Rust
Language:Rust1 3 00
TravisWheelerLab/trans-hmmer
Fork of HMMER, containing translated search variants: hmmsearcht and hmmscant
Language:C1 5 0
TravisWheelerLab/nailforge
a fast and sensitive nucleotide and protein sequence homology prefilter
Language:C++01
TravisWheelerLab/atlas_md_download
Download MD from https://www.dsimb.inserm.fr/ATLAS/index.html
Language:Python2 0
TravisWheelerLab/BATH-paper
Language:C2 0
TravisWheelerLab/Diviner
Using Mirage2 MSAs to uncover exons hiding in plain sight
Language:Perl3 0
TravisWheelerLab/easel
Sequence analysis library used by Eddy/Rivas lab code
Language:C1 0
TravisWheelerLab/face
Processing FAISS hits with Python/Rust
Language:Python3 0
TravisWheelerLab/geomxrename
Rename files for use by GeoMX NGS Pipeline app on BaseSpace (Illumina)
Language:Python2 0
TravisWheelerLab/nail-benchmarks
A collection of reproducible benchmarks for nail
Language:Python2 0
TravisWheelerLab/release-workflow-example
Example of tags triggering github actions to create releases
Language:C
TravisWheelerLab/seqr
FASTX sequence tool
Language:Rust3 0
TravisWheelerLab/tallyman
Tallyman helps you count sequence occurrences
Language:Jupyter Notebook6 141
TravisWheelerLab/ULTRA-paper
Language:Jupyter Notebook
TravisWheelerLab/VIBES-paper
Language:Nextflow2 0
TravisWheelerLab/wikijs
Wiki.js | A modern and powerful wiki app built on Node.js | Wheeler Lab fork
Language:Vue0 0